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CELLULAR RETINOIC ACID BINDING PROTEIN II IN COMPLEX WITH A SYNTHETIC RETINOIC ACID (RO-13 6307)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CBS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 20% MONOMETHYL PEG 5000
0.1 M SODIUM ACETATE PH 5.5
Crystal Properties Matthews coefficient Solvent content 2.59 52.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.25 α = 90 b = 47.64 β = 90 c = 74.83 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 IMAGE PLATE RIGAKU M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.1 45.2 97.7 0.061 25.9 4.3 9683 11.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 2.15 97.7 0.16 11.6 4.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION OTHER THROUGHOUT 1CBS 2.1 8 9453 780 97.2 0.2 0.2001 0.233 0.2326 RANDOM 22.3
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -3.29 -0.64 3.93
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 25.3 x_scangle_it 4.05 x_scbond_it 2.63 x_mcangle_it 2.19 x_angle_deg 1.4 x_mcbond_it 1.4 x_improper_angle_d 0.69 x_bond_d 0.007 x_bond_d_na x_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 25.3 x_scangle_it 4.05 x_scbond_it 2.63 x_mcangle_it 2.19 x_angle_deg 1.4 x_mcbond_it 1.4 x_improper_angle_d 0.69 x_bond_d 0.007 x_bond_d_na x_bond_d_prot x_angle_d x_angle_d_na x_angle_d_prot x_angle_deg_na x_angle_deg_prot x_dihedral_angle_d_na x_dihedral_angle_d_prot x_improper_angle_d_na x_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1091 Nucleic Acid Atoms Solvent Atoms 53 Heterogen Atoms 25
Software Software Software Name Purpose X-PLOR model building CNS refinement DENZO data reduction SCALEPACK data scaling X-PLOR phasing